Variant report

Variant	rs4945835
Chromosome Location	chr6:109920561-109920562
allele	A/C
Outlinks	Ensembl UCSC

Chromatin state
Related regulatory elements
Target genes
Other information

Extended variants
information (count: 117 )
Associated
traits (count: 2 )

rSNPs within LD-proxies of this variant (count:111)

rs_ID	r²[population]
rs10457201	0.82[EUR][1000 genomes]
rs10872035	0.82[EUR][1000 genomes];0.85[ASN][1000 genomes]
rs10872041	0.80[EUR][1000 genomes]
rs10872047	0.80[EUR][1000 genomes]
rs10872051	0.80[EUR][1000 genomes]
rs10872052	0.80[EUR][1000 genomes]
rs11153193	0.80[EUR][1000 genomes]
rs11153194	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs11153200	0.82[EUR][1000 genomes]
rs11153201	0.81[EUR][1000 genomes]
rs1115977	0.84[EUR][1000 genomes]
rs12204769	0.82[EUR][1000 genomes]
rs12215867	0.82[EUR][1000 genomes]
rs12524352	0.84[EUR][1000 genomes]
rs1321327	0.82[EUR][1000 genomes]
rs1406957	0.81[EUR][1000 genomes]
rs1474959	0.84[EUR][1000 genomes]
rs1570011	0.81[EUR][1000 genomes]
rs1570012	0.82[EUR][1000 genomes]
rs1570013	0.82[EUR][1000 genomes]
rs1575108	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.88[ASN][1000 genomes]
rs1575109	0.82[EUR][1000 genomes]
rs1967725	0.84[EUR][1000 genomes]
rs1969710	0.83[EUR][1000 genomes]
rs1969711	0.84[EUR][1000 genomes]
rs2064820	0.80[EUR][1000 genomes]
rs2093097	0.91[AMR][1000 genomes];0.89[EUR][1000 genomes];0.84[ASN][1000 genomes]
rs2208210	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.90[ASN][1000 genomes]
rs2357123	0.80[EUR][1000 genomes]
rs2357125	0.82[EUR][1000 genomes]
rs2357128	0.91[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs2357129	0.91[AMR][1000 genomes];0.84[EUR][1000 genomes]
rs2357130	0.80[EUR][1000 genomes]
rs2884101	0.80[EUR][1000 genomes]
rs4454170	0.80[EUR][1000 genomes]
rs4523125	0.84[EUR][1000 genomes]
rs4946986	0.80[EUR][1000 genomes]
rs4946987	0.80[EUR][1000 genomes]
rs4946989	0.82[EUR][1000 genomes]
rs4946991	0.83[EUR][1000 genomes]
rs4946992	0.84[EUR][1000 genomes]
rs4946993	0.88[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs4946996	0.81[EUR][1000 genomes]
rs4946999	0.80[EUR][1000 genomes]
rs62435981	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs67715693	0.81[EUR][1000 genomes]
rs6922784	0.86[AMR][1000 genomes];0.89[EUR][1000 genomes];0.89[ASN][1000 genomes]
rs6929823	0.81[EUR][1000 genomes]
rs7453835	0.84[EUR][1000 genomes]
rs7454678	0.84[EUR][1000 genomes]
rs7454858	0.82[EUR][1000 genomes]
rs7744981	0.80[EUR][1000 genomes]
rs7745469	0.80[EUR][1000 genomes]
rs7749386	0.84[EUR][1000 genomes]
rs7749910	0.80[EUR][1000 genomes]
rs7754118	0.84[EUR][1000 genomes]
rs7754606	0.84[EUR][1000 genomes]
rs7761008	0.81[EUR][1000 genomes]
rs7765265	0.80[EUR][1000 genomes]
rs829813	0.86[EUR][1000 genomes];0.81[ASN][1000 genomes]
rs829814	0.85[EUR][1000 genomes]
rs9320299	0.81[EUR][1000 genomes]
rs9320304	0.84[EUR][1000 genomes]
rs9320305	0.84[EUR][1000 genomes]
rs9372216	0.81[EUR][1000 genomes]
rs9372221	0.82[EUR][1000 genomes]
rs9372222	0.81[EUR][1000 genomes]
rs9374095	0.80[EUR][1000 genomes]
rs9374097	0.80[EUR][1000 genomes]
rs9374099	0.80[EUR][1000 genomes]
rs9374108	0.84[EUR][1000 genomes]
rs9384713	0.80[EUR][1000 genomes]
rs9384715	0.81[EUR][1000 genomes]
rs9384716	0.82[EUR][1000 genomes]
rs9384717	0.89[AMR][1000 genomes];0.90[EUR][1000 genomes];0.91[ASN][1000 genomes]
rs9386812	0.80[EUR][1000 genomes]
rs9386813	0.80[EUR][1000 genomes]
rs9386816	0.80[EUR][1000 genomes]
rs9386818	0.84[EUR][1000 genomes]
rs9386823	0.84[EUR][1000 genomes]
rs9386824	0.84[EUR][1000 genomes]
rs9386825	0.84[EUR][1000 genomes]
rs9386826	0.82[EUR][1000 genomes]
rs9398206	0.82[EUR][1000 genomes]
rs9400288	0.82[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9400291	0.80[EUR][1000 genomes]
rs9400294	0.80[EUR][1000 genomes]
rs9400295	0.80[EUR][1000 genomes]
rs9400301	0.84[EUR][1000 genomes]
rs9400307	0.81[EUR][1000 genomes]
rs9400310	0.80[EUR][1000 genomes]
rs9400314	0.85[EUR][1000 genomes];0.83[ASN][1000 genomes]
rs9480973	0.80[EUR][1000 genomes]
rs9480974	0.80[EUR][1000 genomes]
rs9480976	0.80[EUR][1000 genomes]
rs9480982	0.84[EUR][1000 genomes]
rs9480984	0.82[EUR][1000 genomes]
rs9480985	0.81[EUR][1000 genomes]
rs9487141	0.80[EUR][1000 genomes]
rs9487148	0.80[EUR][1000 genomes]
rs9487156	0.82[EUR][1000 genomes]
rs9487160	0.84[EUR][1000 genomes]
rs9487164	0.82[EUR][1000 genomes]
rs9487170	0.84[EUR][1000 genomes]
rs9487171	0.84[EUR][1000 genomes]
rs9487172	0.82[EUR][1000 genomes]
rs9487175	0.82[EUR][1000 genomes]
rs9487176	0.82[EUR][1000 genomes]
rs9487178	0.81[EUR][1000 genomes]
rs9487180	0.80[EUR][1000 genomes]
rs9986507	0.84[EUR][1000 genomes]

Variant overlapped rSNPs/rCNVs (count:6 , 50 per page) page: 1

No.	Variant name	Chromosome position	Chromatin state	Related regulatory elements	Target genes	Extended variants	Associated traits
1	nsv1026012	chr6:109851638-109999379	Weak transcription Enhancers Genic enhancers Strong transcription ZNF genes & repeats Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
2	nsv604484	chr6:109851937-109997529	ZNF genes & repeats Weak transcription Enhancers Strong transcription Genic enhancers Flanking Active TSS Active TSS	TF binding region CpG island Chromatin interactive region	2 gene(s)	inside rSNPs	diseases
3	nsv1019389	chr6:109868058-109987502	Weak transcription Flanking Active TSS ZNF genes & repeats Enhancers Strong transcription Genic enhancers Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
4	nsv538416	chr6:109868058-109987502	Genic enhancers ZNF genes & repeats Weak transcription Strong transcription Enhancers Active TSS Flanking Active TSS	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
5	nsv917318	chr6:109885195-109982375	Enhancers Weak transcription ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers	TF binding region CpG island Chromatin interactive region	1 gene(s)	inside rSNPs	diseases
6	nsv949475	chr6:109907936-110160501	Weak transcription Enhancers ZNF genes & repeats Active TSS Strong transcription Flanking Active TSS Genic enhancers Bivalent Enhancer Flanking Bivalent TSS/Enh Transcr. at gene 5' and 3' Bivalent/Poised TSS	TF binding region CpG island Chromatin interactive region lncRNA	6 gene(s)	inside rSNPs	diseases

mRNA abundance (count:2)

SNP	Gene	Cis/trans	Tissue	Source
rs4945835	C6orf199	Cis_1M	lymphoblastoid	RTeQTL
rs4945835	SMPD2	cis	Whole Blood	GTEx

Chromatin state (count:2 , 50 per page) page: 1

No.	Chromosome Location	Chromatin state	Cell line	Tissue
1	chr6:109917800-109924800	Weak transcription	Aorta	Aorta
2	chr6:109918000-109925200	Weak transcription	Thymus	Thymus

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